Package: mogsa

Version: 1.18.1

Command: /home/biocbuild/bbs-3.9-bioc/R/bin/R CMD check --install=check:mogsa.install-out.txt --library=/home/biocbuild/bbs-3.9-bioc/R/library --no-vignettes --timings mogsa_1.18.1.tar.gz

StartedAt: 2019-10-16 03:17:46 -0400 (Wed, 16 Oct 2019)

EndedAt: 2019-10-16 03:21:18 -0400 (Wed, 16 Oct 2019)

EllapsedTime: 212.0 seconds

RetCode: 0

Status:  OK

CheckDir: mogsa.Rcheck

Warnings: 0

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### Running command:
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###   /home/biocbuild/bbs-3.9-bioc/R/bin/R CMD check --install=check:mogsa.install-out.txt --library=/home/biocbuild/bbs-3.9-bioc/R/library --no-vignettes --timings mogsa_1.18.1.tar.gz
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* using log directory ‘/home/biocbuild/bbs-3.9-bioc/meat/mogsa.Rcheck’
* using R version 3.6.1 (2019-07-05)
* using platform: x86_64-pc-linux-gnu (64-bit)
* using session charset: UTF-8
* using option ‘--no-vignettes’
* checking for file ‘mogsa/DESCRIPTION’ ... OK
* checking extension type ... Package
* this is package ‘mogsa’ version ‘1.18.1’
* checking package namespace information ... OK
* checking package dependencies ... OK
* checking if this is a source package ... OK
* checking if there is a namespace ... OK
* checking for hidden files and directories ... OK
* checking for portable file names ... OK
* checking for sufficient/correct file permissions ... OK
* checking whether package ‘mogsa’ can be installed ... OK
* checking installed package size ... OK
* checking package directory ... OK
* checking ‘build’ directory ... OK
* checking DESCRIPTION meta-information ... OK
* checking top-level files ... OK
* checking for left-over files ... OK
* checking index information ... OK
* checking package subdirectories ... OK
* checking R files for non-ASCII characters ... OK
* checking R files for syntax errors ... OK
* checking whether the package can be loaded ... OK
* checking whether the package can be loaded with stated dependencies ... OK
* checking whether the package can be unloaded cleanly ... OK
* checking whether the namespace can be loaded with stated dependencies ... OK
* checking whether the namespace can be unloaded cleanly ... OK
* checking dependencies in R code ... OK
* checking S3 generic/method consistency ... OK
* checking replacement functions ... OK
* checking foreign function calls ... OK
* checking R code for possible problems ... OK
* checking Rd files ... OK
* checking Rd metadata ... OK
* checking Rd cross-references ... OK
* checking for missing documentation entries ... OK
* checking for code/documentation mismatches ... OK
* checking Rd \usage sections ... OK
* checking Rd contents ... OK
* checking for unstated dependencies in examples ... OK
* checking contents of ‘data’ directory ... OK
* checking data for non-ASCII characters ... OK
* checking data for ASCII and uncompressed saves ... OK
* checking files in ‘vignettes’ ... OK
* checking examples ... OK
Examples with CPU or elapsed time > 5s
               user system elapsed
prepSupMoa   39.496  0.107  39.650
prepGraphite 35.695  0.511  36.224
* checking for unstated dependencies in vignettes ... OK
* checking package vignettes in ‘inst/doc’ ... OK
* checking running R code from vignettes ... SKIPPED
* checking re-building of vignette outputs ... SKIPPED
* checking PDF version of manual ... OK
* DONE

Status: OK

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### Running command:
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###   /home/biocbuild/bbs-3.9-bioc/R/bin/R CMD INSTALL mogsa
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* installing to library ‘/home/biocbuild/bbs-3.9-bioc/R/library’
* installing *source* package ‘mogsa’ ...
** using staged installation
** R
** data
** inst
** byte-compile and prepare package for lazy loading
** help
*** installing help indices
** building package indices
** installing vignettes
** testing if installed package can be loaded from temporary location
** testing if installed package can be loaded from final location
** testing if installed package keeps a record of temporary installation path
* DONE (mogsa)

name	user	system	elapsed
GIS	0.673	0.008	0.682
annotate.gs	0.147	0.016	0.163
bootMbpca	0	0	0
bootMoa	0.001	0.000	0.000
box.gs.feature	0.296	0.000	0.296
combine-methods	0.281	0.000	0.281
decompose.gs.group	0.190	0.000	0.191
decompose.gs.ind	0.469	0.000	0.469
distMoa	0.304	0.004	0.308
getmgsa	0.156	0.000	0.156
matpower	0	0	0
mbpca	4.519	0.040	4.559
mgsa-class	0.280	0.008	0.287
moGap	2.504	0.016	2.521
moa-class	0.092	0.000	0.092
moa	0.686	0.020	0.705
moa.sup-class	0.144	0.004	0.147
moaCoef	0.495	0.000	0.496
moaScore	0.474	0.000	0.475
mogsa-package	0.207	0.000	0.208
mogsa	0.278	0.000	0.277
pairwise.rv	0.011	0.000	0.011
plotGS	0.102	0.004	0.106
prepGraphite	35.695	0.511	36.224
prepMsigDB	0.003	0.000	0.015
prepSupMoa	39.496	0.107	39.650
softK	0.001	0.000	0.000
sup.moa	0.421	0.000	0.421
wsvd	0.001	0.000	0.000